ArticleProtein science : a publication of the Protein Society2020
Peppy: A virtual reality environment for exploring the principles of polypeptide structure.
Article in Protein science : a publication of the Protein Society, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 6 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
6 citing papers in PubMed, 37 citations in OpenAlex.
- The virus lesson: Teaching viral structure and quasi-symmetry in mixed reality.Protein science : a publication of the Protein Society · 2026Article
- Exploring 3D Models Via Extended Reality Tools Using Common Smart Devices.Methods in molecular biology (Clifton, N.J.) · 2026Article
- A Brave New World: Virtual Reality and Augmented Reality in Systems Biology.Frontiers in bioinformatics · 2022Article
- Analyzing Sequence Data with Markov Chain Models in Scientific Experiments.SN computer science · 2021Article
- Peppy: A virtual reality environment for exploring the principles of polypeptide structure.Protein science : a publication of the Protein Society · 2020Article
- An immersive journey to the molecular structure of SARS-CoV-2: Virtual reality in COVID-19.Computational and structural biotechnology journal · 2020Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 3 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
A key learning outcome for undergraduate biochemistry classes is a thorough understanding of the principles of protein structure. Traditional approaches to teaching this material, which include two-dimensional (2D) images on paper, physical molecular modeling kits, and projections of 3D structures into 2D, are unable to fully capture the dynamic 3D nature of proteins. We have built a virtual reality application, Peppy, aimed at facilitating teaching of the principles of protein secondary structure. Rather than attempt to model molecules with the same fidelity to the underlying physical chemistry as existing, research-oriented molecular modelling approaches, we took the more straightforward approach of harnessing the Unity video game physics engine. Indeed, the simplicity and limitations of our model are strengths in a teaching context, provoking questions and thus deeper understanding. Peppy allows exploration of the relative effects of hydrogen bonding (and electrostatic interactions more generally), backbone φ/ψ angles, basic chemical structure, and steric effects on a polypeptide structure in an accessible format that is novel, dynamic, and fun to use. Apart from describing the implementation and use of Peppy, we discuss the outcomes of deploying Peppy in undergraduate biochemistry courses.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.